genome.fa.s7909.2.7.7.80.10.50.1000.9.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3382237

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  9  of  17  ( 1978 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535229--1535294	22	3.1	22	80	8	66	37	12	12	37	1.80
1535273--1536167	184	4.9	184	99	0	1736	35	14	15	34	1.89
1538633--1539444	408	2.0	408	98	1	1576	40	8	12	39	1.73
1543740--1543977	115	2.1	115	100	0	476	39	17	8	34	1.80
1554250--1554283	16	2.1	16	94	0	59	32	8	26	32	1.87
1571811--1571903	21	4.6	20	78	4	96	38	18	24	18	1.92
1571808--1571903	41	2.3	41	98	0	183	39	17	23	18	1.92
1571811--1571903	20	4.6	20	78	4	96	38	18	24	18	1.92
1571892--1571985	20	4.7	20	77	2	80	35	24	17	23	1.95
1571889--1571966	41	1.9	41	83	0	102	41	21	15	21	1.90
1572505--1572569	19	3.4	19	84	2	76	44	26	18	10	1.82
1572565--1572749	19	10.1	19	75	14	156	12	21	21	43	1.86
1572565--1572654	39	2.3	38	92	1	144	12	18	22	46	1.82
1572637--1572724	33	2.6	33	89	1	122	12	23	23	39	1.89
1572703--1572749	20	2.3	20	79	13	60	12	25	14	46	1.80
1574750--1574872	42	2.9	42	80	2	122	22	36	17	22	1.95
1574806--1574872	21	3.2	21	66	6	55	23	35	20	19	1.95
1576233--1576266	14	2.4	14	95	0	59	32	0	23	44	1.54
1576445--1576562	19	6.7	19	66	19	76	13	23	20	42	1.88
1576449--1576542	33	2.8	33	98	0	179	12	24	19	43	1.85
1577895--1577952	14	3.9	14	77	16	62	8	15	25	50	1.73
1577878--1577968	32	2.8	33	93	3	157	10	17	23	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577953--1578007	20	2.8	19	83	8	65	16	23	23	36	1.94
1578480--1578524	18	2.5	18	85	0	63	15	15	42	26	1.87
1579833--1579870	20	1.9	20	88	0	58	50	21	15	13	1.78
1580134--1580177	22	2.0	22	95	0	79	18	15	45	20	1.85
1580365--1580458	20	4.7	20	80	2	89	23	18	24	34	1.96
1580345--1580459	20	5.7	20	78	5	88	23	17	23	35	1.95
1580448--1580519	20	3.5	20	77	3	90	19	22	18	40	1.92
1580933--1581029	45	2.1	47	96	3	180	55	0	2	42	1.11
1580933--1581034	11	8.9	11	71	25	70	56	0	1	41	1.10
1581137--1581265	50	2.5	51	77	3	136	34	4	15	44	1.67
1581233--1581712	51	9.4	51	77	8	379	31	13	19	35	1.90
1581238--1581713	154	3.1	154	78	5	430	31	13	19	36	1.90
1581234--1581716	103	4.7	102	78	6	388	31	13	19	36	1.90
1581632--1581797	88	1.9	88	83	2	217	34	12	15	37	1.84
1584254--1584947	347	2.0	347	98	0	1334	26	20	17	36	1.94
1590057--1590115	27	2.2	27	96	0	109	42	16	13	27	1.86
1592403--1592470	27	2.6	27	95	4	122	41	16	11	30	1.84
1607829--1607855	4	6.8	4	100	0	54	77	0	0	22	0.76
1610772--1610816	23	2.0	24	82	8	58	75	0	6	17	1.01
1610835--1610930	5	19.4	5	69	12	56	73	5	2	18	1.11
1610831--1610868	20	1.9	20	88	0	58	76	0	5	18	0.97
1610845--1610906	23	2.6	24	82	12	74	72	4	1	20	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611539--1611567	12	2.5	12	94	5	51	82	0	13	3	0.79
1620515--1621527	84	12.2	84	81	4	996	30	23	18	26	1.98
1620515--1621524	249	4.0	249	83	3	1063	30	23	19	26	1.98
1623140--1623186	22	2.1	24	84	11	64	17	2	4	76	1.04
1627911--1627957	12	4.3	11	82	17	62	78	0	2	19	0.85
1627912--1627962	5	9.8	5	80	18	52	78	0	1	19	0.85
1628011--1628339	38	8.9	37	80	8	341	41	10	3	44	1.56
1628011--1628336	74	4.4	74	80	6	326	41	10	3	44	1.56
1630120--1630164	23	2.0	23	86	0	63	46	6	26	20	1.75
1637999--1638043	20	2.2	20	92	0	72	28	24	11	35	1.90
1646188--1646265	39	2.0	41	87	5	115	37	12	16	33	1.87
1646177--1646273	39	2.4	39	79	3	113	36	11	17	35	1.86
1646589--1646648	29	2.1	29	81	9	70	31	13	10	45	1.76
1647999--1648032	17	2.0	17	88	11	52	50	0	2	47	1.16
1649403--1649513	52	2.2	49	85	4	141	46	7	0	45	1.37
1650055--1650119	31	2.1	31	100	0	130	33	9	18	38	1.83
1652707--1652747	20	2.1	20	86	13	59	31	0	0	68	0.90
1653973--1654007	3	11.7	3	88	11	54	37	0	0	62	0.95
1658637--1658694	21	2.6	22	81	5	64	75	6	13	3	1.13
1658633--1658698	29	2.3	30	82	12	84	75	6	15	3	1.11
1659758--1659820	32	2.0	32	90	0	99	28	14	23	33	1.94
1661821--1661855	18	1.9	18	88	11	54	54	5	17	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662867--1662911	23	2.0	23	90	0	72	22	26	26	24	2.00
1663891--1664116	85	2.6	85	83	4	258	37	19	16	26	1.93
1665411--1665452	22	1.9	22	85	0	57	47	19	2	30	1.62
1668704--1668767	23	2.8	24	77	13	71	67	6	1	25	1.23
1670766--1670804	17	2.4	17	95	4	71	43	0	5	51	1.24
1670921--1670999	32	2.5	32	100	0	158	41	8	24	25	1.83
1673987--1674016	2	15.0	2	92	0	51	50	3	0	46	1.18
1676839--1676884	21	2.2	21	84	0	56	32	13	26	28	1.93
1676873--1676932	20	2.9	20	81	13	77	13	21	25	40	1.89
1676876--1676989	22	5.4	22	77	10	105	17	18	24	39	1.92
1676876--1676967	41	2.2	41	86	5	123	17	18	23	40	1.91
1677257--1677309	22	2.4	22	83	0	79	37	28	15	18	1.91
1683556--1683647	40	2.2	40	84	7	114	32	2	20	44	1.64
1701908--1702129	104	2.1	104	85	4	288	31	17	9	41	1.81
1702830--1702895	28	2.4	28	97	0	123	24	9	16	50	1.74
1702938--1703220	134	2.1	134	87	2	399	28	30	18	22	1.97
1703114--1703312	92	2.2	92	84	4	251	29	29	16	25	1.96
1703517--1703584	3	22.0	3	82	11	84	32	4	1	61	1.24
1705154--1705188	16	2.2	16	89	0	52	17	11	5	65	1.43
1705307--1705354	18	2.6	17	84	12	60	31	8	0	60	1.26
1711802--1711891	14	6.5	14	77	1	74	27	35	15	21	1.94
1711812--1711891	42	1.9	42	86	0	115	27	35	16	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713803--1713877	18	3.9	20	83	16	113	29	32	21	17	1.96
1718840--1718931	18	4.9	18	83	7	121	30	31	20	17	1.96
1718840--1718931	39	2.4	38	89	5	134	30	31	20	17	1.96
1720461--1720516	20	2.5	22	78	21	64	23	21	21	33	1.97
1721976--1722100	66	1.9	66	86	0	178	22	19	22	36	1.95
1726981--1727013	16	2.0	17	88	5	50	51	0	0	48	1.00
1728189--1728229	21	2.0	21	85	0	55	41	2	2	53	1.27
1734735--1734832	15	6.4	14	74	17	72	20	2	10	67	1.30
1734735--1734832	30	3.2	30	80	7	99	20	2	10	67	1.30
1734766--1734849	16	5.4	16	71	4	64	22	0	8	69	1.15
1734735--1734832	31	3.2	31	75	15	96	20	2	10	67	1.30
1734759--1734849	47	2.0	46	93	2	155	21	0	9	68	1.19
1734724--1734840	15	7.7	15	72	11	58	21	1	10	66	1.30
1746008--1746091	37	2.3	38	85	6	111	33	3	19	44	1.68
1750583--1750666	37	2.3	38	87	6	120	33	4	19	42	1.72
1756811--1756876	3	22.0	3	100	0	132	66	0	0	33	0.92
1758016--1758048	2	16.5	2	100	0	66	51	0	0	48	1.00
1758819--1758876	22	2.6	22	100	0	116	34	20	8	36	1.84
1760514--1760542	14	2.1	14	100	0	58	27	6	13	51	1.66
1763004--1763034	15	2.1	15	93	0	53	45	6	16	32	1.72
1764434--1764585	56	2.7	56	80	4	162	32	15	13	39	1.85
1769746--1769940	60	3.2	60	80	13	256	38	23	16	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769746--1769966	60	3.7	61	79	14	253	38	23	16	21	1.93
1769746--1769997	60	4.2	62	79	12	251	38	23	15	22	1.92
1769945--1770055	39	2.8	39	85	6	136	36	22	9	31	1.87
1769945--1770055	19	5.7	19	85	6	134	36	22	9	31	1.87
1769687--1770056	20	18.6	20	75	14	191	36	24	14	24	1.93
1770896--1770949	24	2.2	24	90	0	81	22	16	20	40	1.91
1773215--1773249	6	5.8	6	86	0	52	60	20	2	17	1.49
1773216--1773261	18	2.6	18	92	0	74	54	26	2	17	1.54
1773754--1773788	14	2.5	14	100	0	70	48	20	0	31	1.50
1775200--1775314	21	5.5	21	78	8	108	23	21	35	19	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17